Strain identifier

BacDive ID: 13667

Type strain: Yes

Species: Jannaschia pohangensis

Strain Designation: H1-M8

Strain history: <- S.-W. Kwon, KACC; H1-M8

NCBI tax ID(s): 390807 (species)

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General

@ref: 7787

BacDive-ID: 13667

DSM-Number: 19073

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Jannaschia pohangensis H1-M8 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from seashore sand.

NCBI tax id

  • NCBI tax id: 390807
  • Matching level: species

strain history

  • @ref: 7787
  • history: <- S.-W. Kwon, KACC; H1-M8

doi: 10.13145/bacdive13667.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Jannaschia
  • species: Jannaschia pohangensis
  • full scientific name: Jannaschia pohangensis Kim et al. 2008

@ref: 7787

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Jannaschia

species: Jannaschia pohangensis

full scientific name: Jannaschia pohangensis Kim et al. 2008

strain designation: H1-M8

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
32231negative1.75 µm0.85 µmrod-shapedyes
69480negative99.994

pigmentation

  • @ref: 32231
  • production: no

Culture and growth conditions

culture medium

  • @ref: 7787
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
7787positivegrowth28mesophilic
32231positivegrowth05-35
32231positiveoptimum30mesophilic

culture pH

@refabilitytypepHPH range
32231positivegrowth06-09alkaliphile
32231positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 32231
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no100

halophily

  • @ref: 32231
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <8.4 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3223116947citrate+carbon source
3223128757fructose+carbon source
3223128260galactose+carbon source
3223117234glucose+carbon source
3223129987glutamate+carbon source
3223117754glycerol+carbon source
3223129864mannitol+carbon source
3223137684mannose+carbon source
3223128053melibiose+carbon source
3223117272propionate+carbon source
3223115361pyruvate+carbon source
3223126546rhamnose+carbon source
3223117822serine+carbon source
3223118222xylose+carbon source
322314853esculin+hydrolysis

enzymes

@refvalueactivityec
32231acid phosphatase+3.1.3.2
32231alkaline phosphatase+3.1.3.1
32231catalase+1.11.1.6
32231gelatinase+
32231cytochrome oxidase+1.9.3.1
32231urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 7787
  • sample type: seashore sand
  • geographic location: Pohang
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Sandy
#Environmental#Aquatic#Marine
#Environmental#Terrestrial#Coast

taxonmaps

  • @ref: 69479
  • File name: preview.99_83863.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_971;97_1131;98_34573;99_83863&stattab=map
  • Last taxonomy: Jannaschia pohangensis subclade
  • 16S sequence: DQ643999
  • Sequence Identity:
  • Total samples: 87
  • soil counts: 1
  • aquatic counts: 82
  • animal counts: 3
  • plant counts: 1

Safety information

risk assessment

  • @ref: 7787
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7787
  • description: Jannaschia pohangensis strain H1-M8 16S ribosomal RNA gene, partial sequence
  • accession: DQ643999
  • length: 1397
  • database: ena
  • NCBI tax ID: 390807

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Jannaschia pohangensis DSM 19073GCA_900113875contigncbi390807
66792Jannaschia pohangensis strain DSM 19073390807.13wgspatric390807
66792Jannaschia pohangensis DSM 190732622736536draftimg390807

GC content

@refGC-contentmethod
778763.6high performance liquid chromatography (HPLC)
3223163.6

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.625yes
anaerobicno98.196yes
halophileyes82.788yes
spore-formingno96.303no
glucose-utilyes79.913yes
aerobicyes90.147yes
motileno55.146no
flagellatedno89.005no
thermophileno97.333yes
glucose-fermentno89.972no

External links

@ref: 7787

culture collection no.: DSM 19073, KACC 11609

straininfo link

  • @ref: 82850
  • straininfo: 402508

literature

  • topic: Phylogeny
  • Pubmed-ID: 18218956
  • title: Jannaschia pohangensis sp. nov., isolated from seashore sand in Korea.
  • authors: Kim BY, Yoo SH, Weon HY, Jeon YA, Hong SB, Go SJ, Stackebrandt E, Kwon SW
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65167-0
  • year: 2008
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, Fatty Acids/analysis, Genes, rRNA, Korea, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, *Silicon Dioxide, *Soil Microbiology, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
7787Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19073)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19073
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
32231Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2847328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
82850Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID402508.1StrainInfo: A central database for resolving microbial strain identifiers